Visualise alpha diversity significance results — plot_alpha

Summarises the pairwise significance table from compute_alpha_significance() either as a filtered tibble (type = "table") or a Cohen's d heatmap with significance annotations (type = "heatmap").

Usage

plot_alpha_significance(
  x,
  metric = NULL,
  rank = NULL,
  type = c("table", "heatmap"),
  p_threshold = 0.05,
  ...
)

Arguments

x: A "phip_alpha_significance" object from compute_alpha_significance().
metric: Character scalar; metric to display. Defaults to the first metric present in x.
rank: Character scalar; rank to display. Defaults to the first rank present in x. Ignored when the data has no rank column.
type: One of "table" (default) or "heatmap".
p_threshold: Numeric; pairs with p_adj > p_threshold are shown in grey in the heatmap and excluded from the table. Default 0.05.
...: Reserved; ignored.

Value

type = "table": a tibble::tibble of significant pairwise results.
type = "heatmap": a ggplot heatmap (Cohen's d fill, stars overlaid).

Examples

if (FALSE) { # \dontrun{
sig <- compute_alpha_significance(alpha_list)
plot_alpha_significance(sig, type = "table")
plot_alpha_significance(sig, type = "heatmap")
} # }